Commit Graph

126 Commits

Author SHA1 Message Date
dr. M.S. (Matthijs) Berends 1b84564d36 (v1.8.1.9011) update prevalence of some genera 2022-06-03 12:43:25 +02:00
dr. M.S. (Matthijs) Berends 70a07bad39 (v1.8.1.9010) random when pkg not loaded 2022-05-16 12:52:50 +02:00
dr. M.S. (Matthijs) Berends 6de5375256 (v1.8.1.9007) website update 2022-05-11 10:10:31 +02:00
dr. M.S. (Matthijs) Berends 859224e9d0 (v1.8.1.9006) added EUCAST 2022 and CLSI 2022 2022-05-10 21:34:30 +02:00
dr. M.S. (Matthijs) Berends d4e22069bc (v1.8.1.9004) fix for table() on MICs 2022-05-09 21:33:27 +02:00
dr. M.S. (Matthijs) Berends 641b88c814 website update 2022-03-27 09:37:55 +02:00
dr. M.S. (Matthijs) Berends 0fb9a1b194 prerelease 1.8.1 2022-03-14 16:43:15 +01:00
dr. M.S. (Matthijs) Berends 45e9546538 prerelease 1.8.1
Merge branch 'development' of https://github.com/msberends/AMR into development

# Conflicts:
#	docs/articles/AMR.html
#	docs/articles/AMR_files/figure-html/disk_plots-1.png
#	docs/articles/AMR_files/figure-html/disk_plots_mo_ab-1.png
#	docs/articles/AMR_files/figure-html/mic_plots-1.png
#	docs/articles/AMR_files/figure-html/mic_plots-2.png
#	docs/articles/AMR_files/figure-html/mic_plots_mo_ab-1.png
#	docs/articles/AMR_files/figure-html/mic_plots_mo_ab-2.png
#	docs/articles/AMR_files/figure-html/plot 1-1.png
#	docs/articles/AMR_files/figure-html/plot 3-1.png
#	docs/articles/AMR_files/figure-html/plot 4-1.png
#	docs/articles/AMR_files/figure-html/plot 5-1.png
#	docs/articles/EUCAST.html
#	docs/articles/MDR.html
#	docs/articles/PCA.html
#	docs/articles/PCA_files/figure-html/unnamed-chunk-6-1.png
#	docs/articles/PCA_files/figure-html/unnamed-chunk-7-1.png
#	docs/articles/SPSS.html
#	docs/articles/WHONET.html
#	docs/articles/WHONET_files/figure-html/unnamed-chunk-7-1.png
#	docs/articles/benchmarks.html
#	docs/articles/benchmarks_files/figure-html/unnamed-chunk-4-1.png
#	docs/articles/datasets.html
#	docs/articles/resistance_predict.html
#	docs/articles/resistance_predict_files/figure-html/unnamed-chunk-4-1.png
#	docs/articles/resistance_predict_files/figure-html/unnamed-chunk-5-1.png
#	docs/articles/resistance_predict_files/figure-html/unnamed-chunk-5-2.png
#	docs/articles/resistance_predict_files/figure-html/unnamed-chunk-6-1.png
#	docs/articles/resistance_predict_files/figure-html/unnamed-chunk-7-1.png
#	docs/articles/welcome_to_AMR.html
#	docs/news/index.html
#	docs/pkgdown.yml
#	docs/reference/AMR-deprecated.html
#	docs/reference/AMR.html
#	docs/reference/WHOCC.html
#	docs/reference/WHONET.html
#	docs/reference/antibiotics.html
#	docs/reference/catalogue_of_life.html
#	docs/reference/catalogue_of_life_version.html
#	docs/reference/dosage.html
#	docs/reference/example_isolates.html
#	docs/reference/example_isolates_unclean.html
#	docs/reference/g.test.html
#	docs/reference/intrinsic_resistant.html
#	docs/reference/microorganisms.codes.html
#	docs/reference/microorganisms.html
#	docs/reference/microorganisms.old.html
#	docs/reference/rsi_translation.html
2022-03-14 16:37:37 +01:00
dr. M.S. (Matthijs) Berends 1b0983e382 (v1.8.1) prerelease 1.8.1 2022-03-14 16:36:10 +01:00
dr. M.S. (Matthijs) Berends 8c9feea087 website update 2022-03-12 19:53:29 +01:00
dr. M.S. (Matthijs) Berends 08d387b5ce (v1.8.0.9005) as.rsi() fix 2022-03-10 19:33:25 +01:00
dr. M.S. (Matthijs) Berends ad82bb4ce0 (v1.8.0.9004) MIC printing in tibbles 2022-03-03 21:11:02 +01:00
dr. M.S. (Matthijs) Berends 18e8525d10 (v1.8.0.9001) as.mo improvement, fixes #52 2022-02-26 21:58:23 +01:00
dr. M.S. (Matthijs) Berends 25cef46c59 (v1.8.0) prerelease 1.8.0 2021-12-23 18:56:28 +01:00
dr. M.S. (Matthijs) Berends 1e66a3daf3 (v1.7.1.9068) new logo, unit tests 2021-12-12 11:07:02 +01:00
dr. M.S. (Matthijs) Berends e63defe324 (v1.7.1.9062) website update 2021-12-06 11:12:30 +01:00
dr. M.S. (Matthijs) Berends 7965468ccd (v1.7.1.9058) vars selection for set_ab_names() 2021-12-05 22:06:45 +01:00
dr. M.S. (Matthijs) Berends 694cf5ba77 (v1.7.1.9054) mdro() update - fixes #49, first_isolate() speedup 2021-11-28 23:01:26 +01:00
dr. M.S. (Matthijs) Berends 37e6e35ec4 (v1.7.1.9051) updated taxonomy, updated git branch name 2021-10-06 13:23:57 +02:00
dr. M.S. (Matthijs) Berends d6a916d70b (v1.7.1.9030) unit test 2021-08-29 23:50:45 +02:00
dr. M.S. (Matthijs) Berends a44283f998 (v1.7.1.9024) unit tests 2021-08-17 14:34:11 +02:00
dr. M.S. (Matthijs) Berends a2d249962f (v1.7.1.9023) Removed filter_ functions, new set_ab_names(), ATC code update, ab selector update, fixes #46 and fixed #47 2021-08-16 21:54:34 +02:00
dr. M.S. (Matthijs) Berends 4e1efd902c (v1.7.1.9022) rely on vctrs for ab selectors 2021-07-23 21:42:11 +02:00
dr. M.S. (Matthijs) Berends 7e70403efb (v1.7.1) New CRAN release 2021-06-03 15:19:21 +02:00
dr. M.S. (Matthijs) Berends bef0f42f66 (v1.7.0.9001) CLSI 2020 guideline 2021-06-01 15:33:06 +02:00
dr. M.S. (Matthijs) Berends ac73a8d849 v1.7.0 2021-05-24 15:29:17 +02:00
dr. M.S. (Matthijs) Berends b210f1327c (v1.6.0.9055) support codecov again 2021-05-21 20:20:51 +02:00
dr. M.S. (Matthijs) Berends 29dbfa2f49 (v1.6.0.9021) join functions update 2021-05-12 18:15:03 +02:00
dr. M.S. (Matthijs) Berends c5fff1c95c (v1.6.0.9011) unit tests 2021-04-27 10:27:13 +02:00
dr. M.S. (Matthijs) Berends 8d6ceb6a15 (v1.5.0.9040) removal of isolate_identifier 2021-03-08 09:44:17 +01:00
dr. M.S. (Matthijs) Berends 450bbe5fb7 (v1.5.0.9034) unit test fix 2021-03-07 21:16:45 +01:00
dr. M.S. (Matthijs) Berends 850c123de7 (v1.5.0.9032) All group generics for MICs 2021-03-07 13:52:39 +01:00
dr. M.S. (Matthijs) Berends 91dd755cac (v1.5.0.9031) math processing of MICs 2021-03-05 15:36:39 +01:00
dr. M.S. (Matthijs) Berends 41f94cde97 (v1.5.0.9027) website update 2021-02-26 12:11:29 +01:00
dr. M.S. (Matthijs) Berends a673407904 (v1.5.0.9025) big plot and ggplot generics update 2021-02-25 10:33:08 +01:00
dr. M.S. (Matthijs) Berends 4a84894f79 (v1.5.0.9016) only_rsi_columns update, documentation 2021-02-08 14:18:42 +01:00
dr. M.S. (Matthijs) Berends 2eca8c3f01 (v1.5.0.9014) only_rsi_columns, is.rsi.eligible improvement 2021-02-02 23:57:35 +01:00
dr. M.S. (Matthijs) Berends 1ba44776a1 (v1.5.0.9008) Internal data sets to pkg, speed for auto col determination 2021-01-22 10:20:41 +01:00
dr. M.S. (Matthijs) Berends 4eab095306 (v1.5.0.9006) major documentation update 2021-01-18 16:57:56 +01:00
dr. M.S. (Matthijs) Berends d3f007bf65 (v1.4.0.9053) unit test old R versions 2020-12-29 21:23:01 +01:00
dr. M.S. (Matthijs) Berends acbd0cf7ca (v1.4.0.9046) get_episode 2020-12-27 00:07:00 +01:00
dr. M.S. (Matthijs) Berends df37584189 (v1.4.0.9044) mo tibble printing, mo_shortname() fix 2020-12-24 23:29:10 +01:00
dr. M.S. (Matthijs) Berends 128ebcfd62 (v1.4.0.9043) documentation update 2020-12-22 00:51:17 +01:00
dr. M.S. (Matthijs) Berends ee70883246 (v1.4.0.9042) auto dark theme website 2020-12-21 22:46:29 +01:00
dr. M.S. (Matthijs) Berends 2145f1d1ba (v1.4.0.9033) documentation update 2020-12-08 12:37:25 +01:00
dr. M.S. (Matthijs) Berends 833a1be36d (v1.4.0.9000) more extensive unit tests 2020-10-15 09:46:41 +02:00
dr. M.S. (Matthijs) Berends 28e77680c5 (v1.4.0) matching score update 2020-10-08 11:16:03 +02:00
dr. M.S. (Matthijs) Berends baf510183c (v1.3.0.9038) prefinal 1.4.0 2020-10-04 19:26:43 +02:00
dr. M.S. (Matthijs) Berends c19095a3d5 (v1.3.0.9026) eucast expert rules 3.2 2020-09-24 00:30:11 +02:00
dr. M.S. (Matthijs) Berends 4e40e42011 (v1.3.0.9022) mo_matching_score(), poorman update, as.rsi() fix 2020-09-18 16:05:53 +02:00